| Allostery in its many disguises: from theory to applications SJ Wodak, E Paci, NV Dokholyan, IN Berezovsky, A Horovitz, J Li, ... Structure 27 (4), 566-578, 2019 | 301 | 2019 |
| Investigation of surfactant efficiency using dissipative particle dynamics L Rekvig, M Kranenburg, J Vreede, B Hafskjold, B Smit Langmuir 19 (20), 8195-8205, 2003 | 224 | 2003 |
| PAS domains: common structure and common flexibility J Vreede, MA van der Horst, KJ Hellingwerf, W Crielaard, DMF van Aalten Journal of Biological Chemistry 278 (20), 18434-18439, 2003 | 118 | 2003 |
| Predicting the reaction coordinates of millisecond light-induced conformational changes in photoactive yellow protein J Vreede, J Juraszek, PG Bolhuis Biophysical Journal 98 (3), 174a, 2010 | 94 | 2010 |
| In vivo mutational analysis of YtvA from Bacillus subtilis: mechanism of light activation of the general stress response M Avila-Pérez, J Vreede, Y Tang, O Bende, A Losi, W Gärtner, ... Journal of biological chemistry 284 (37), 24958-24964, 2009 | 91 | 2009 |
| Mechanism of environmentally driven conformational changes that modulate H-NS DNA-bridging activity RA van der Valk, J Vreede, L Qin, GF Moolenaar, A Hofmann, N Goosen, ... Elife 6, e27369, 2017 | 90 | 2017 |
| Influence of Glu/Arg, Asp/Arg, and Glu/Lys salt bridges on α-helical stability and folding kinetics H Meuzelaar, J Vreede, S Woutersen Biophysical journal 110 (11), 2328-2341, 2016 | 76 | 2016 |
| Common G102S polymorphism in chitotriosidase differentially affects activity towards 4‐methylumbelliferyl substrates AP Bussink, M Verhoek, J Vreede, K Ghauharali‐van der Vlugt, ... The FEBS journal 276 (19), 5678-5688, 2009 | 51 | 2009 |
| Elucidating the locking mechanism of peptides onto growing amyloid fibrils through transition path sampling M Schor, J Vreede, PG Bolhuis Biophysical journal 103 (6), 1296-1304, 2012 | 45 | 2012 |
| Solvent-exposed salt bridges influence the kinetics of α-helix folding and unfolding H Meuzelaar, M Tros, A Huerta-Viga, CN van Dijk, J Vreede, S Woutersen The journal of physical chemistry letters 5 (5), 900-904, 2014 | 43 | 2014 |
| Transition path sampling of protein conformational changes J Juraszek, J Vreede, PG Bolhuis Chemical Physics 396, 30-44, 2012 | 41 | 2012 |
| Cis-to-Trans Isomerization of Azobenzene Derivatives Studied with Transition Path Sampling and Quantum Mechanical/Molecular Mechanical Molecular Dynamics A Muzdalo, P Saalfrank, J Vreede, M Santer Journal of chemical theory and computation 14 (4), 2042-2051, 2018 | 40 | 2018 |
| Structural basis for osmotic regulation of the DNA binding properties of H-NS proteins L Qin, FB Bdira, YGJ Sterckx, AN Volkov, J Vreede, G Giachin, ... Nucleic acids research 48 (4), 2156-2172, 2020 | 39 | 2020 |
| Predicting the signaling state of photoactive yellow protein J Vreede, W Crielaard, KJ Hellingwerf, PG Bolhuis Biophysical journal 88 (5), 3525-3535, 2005 | 38 | 2005 |
| A model of H-NS mediated compaction of bacterial DNA M Joyeux, J Vreede Biophysical journal 104 (7), 1615-1622, 2013 | 36 | 2013 |
| Native thrombocidin-1 and unfolded thrombocidin-1 exert antimicrobial activity via distinct structural elements PHS Kwakman, J Krijgsveld, L de Boer, LT Nguyen, L Boszhard, J Vreede, ... Journal of Biological Chemistry 286 (50), 43506-43514, 2011 | 35 | 2011 |
| The trigger factor chaperone encapsulates and stabilizes partial folds of substrate proteins K Singhal, J Vreede, A Mashaghi, SJ Tans, PG Bolhuis PLoS computational biology 11 (10), e1004444, 2015 | 33 | 2015 |
| Genomic looping: a key principle of chromatin organization RA Van Der Valk, J Vreede, F Crémazy, RT Dame Journal of molecular microbiology and biotechnology 24 (5-6), 344-359, 2015 | 32 | 2015 |
| A single histidine residue modulates enzymatic activity in acidic mammalian chitinase AP Bussink, J Vreede, JMFG Aerts, RG Boot FEBS letters 582 (6), 931-935, 2008 | 27 | 2008 |
| Protonation of the chromophore in the Photoactive Yellow Protein EJM Leenders, L Guidoni, U Röthlisberger, J Vreede, PG Bolhuis, ... The Journal of Physical Chemistry B 111 (14), 3765-3773, 2007 | 24 | 2007 |
